Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 124 of 126
Found at i:24875984 original size:11 final size:11
Alignment explanation
Indices: 24875934--24875984 Score: 57
Period size: 13 Copynumber: 4.3 Consensus size: 11
24875924 TTTTGATCTA
24875934 AAATTTAATAT
1 AAATTTAATAT
*
24875945 ATATTTAATAT
1 AAATTTAATAT
24875956 ATATATTTAATATTT
1 A-A-ATTTAATA--T
24875971 AAATTTAATAT
1 AAATTTAATAT
24875982 AAA
1 AAA
24875985 AAAAATCGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
11 15 0.44
13 16 0.47
14 1 0.03
15 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
AAATTTAATAT
Found at i:24884034 original size:20 final size:20
Alignment explanation
Indices: 24883995--24884035 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
24883985 TTCATATTTT
*
24883995 AAATAATTATATTTAAATAA
1 AAATAATTATATATAAATAA
24884015 AAATAATTAT-TATAAGATAA
1 AAATAATTATATATAA-ATAA
24884035 A
1 A
24884036 TAATCATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAATAATTATATATAAATAA
Found at i:24892589 original size:16 final size:16
Alignment explanation
Indices: 24892550--24892581 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24892540 AAATAAATAA
24892550 AAAATTAATTTAATTT
1 AAAATTAATTTAATTT
*
24892566 AAAATTAATTTTATTT
1 AAAATTAATTTAATTT
24892582 TTAATTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AAAATTAATTTAATTT
Found at i:24907094 original size:110 final size:111
Alignment explanation
Indices: 24906895--24907125 Score: 306
Period size: 110 Copynumber: 2.1 Consensus size: 111
24906885 GCTTACTTAC
* *
24906895 TACTATTTGC-TTTTTTGTTTTTCAATTTCACTATCATGTACATCATTAGCATGTTTTGTAAGCT
1 TACTATTT-CTTTTTTTGTTTTTCAATTTCACCATCATGTACATCATTAGCATGTTTTATAAGCT
* * ****
24906959 AATAGAAGCAGCATTGATGTTTGGAGTTTCTGATA-ATTTACAATAAT
65 AACAGAAGCAGCATTAACACCTGGAGTTTCTGA-AGATTTACAATAAT
*
24907006 TACTATTTCTTTTTTTGTTTTTCAA-TTCACCATCATGTACATTATTAGCATGTTTTATAAGCTA
1 TACTATTTCTTTTTTTGTTTTTCAATTTCACCATCATGTACATCATTAGCATGTTTTATAAGCTA
* *
24907070 ACAGAAGCAGCATTAACACCTGGAGTTTGTGAAGTTTTACAATAAT
66 ACAGAAGCAGCATTAACACCTGGAGTTTCTGAAGATTTACAATAAT
* *
24907116 TTCTAATTCT
1 TACTATTTCT
24907126 GATTATACAA
Statistics
Matches: 105, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
109 1 0.01
110 81 0.77
111 23 0.22
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (111 bp):
TACTATTTCTTTTTTTGTTTTTCAATTTCACCATCATGTACATCATTAGCATGTTTTATAAGCTA
ACAGAAGCAGCATTAACACCTGGAGTTTCTGAAGATTTACAATAAT
Found at i:24935964 original size:14 final size:14
Alignment explanation
Indices: 24935922--24935969 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
24935912 AAATATATAT
24935922 TAAATTCGAATTAAA
1 TAAATT-GAATTAAA
* **
24935937 AAAATAAAAATTAAA
1 TAAAT-TGAATTAAA
24935952 TAAATTGAATTAAA
1 TAAATTGAATTAAA
24935966 TAAA
1 TAAA
24935970 ATTATATATT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (14 bp):
TAAATTGAATTAAA
Found at i:24936007 original size:20 final size:19
Alignment explanation
Indices: 24935972--24936012 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
24935962 TAAATAAAAT
**
24935972 TATATATTTTTTAATTTATA
1 TATATATTTTAAAATTT-TA
24935992 TATATATTTTAAAATTTTA
1 TATATATTTTAAAATTTTA
24936011 TA
1 TA
24936013 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATATATTTTAAAATTTTA
Found at i:24936077 original size:39 final size:35
Alignment explanation
Indices: 24935989--24936079 Score: 94
Period size: 39 Copynumber: 2.5 Consensus size: 35
24935979 TTTTTAATTT
*
24935989 ATATATATATTTTAAAATTTTATAAAATAAAAATA
1 ATATATATATATTAAAATTTTATAAAATAAAAATA
* *
24936024 ATA-ATTTTATATTAAAATTTATTTAAATATATTAAAATA
1 ATATA-TATATATTAAAATTT-TATAAA-ATA--AAAATA
*
24936063 ATATATATAAATTAAAA
1 ATATATATATATTAAAA
24936080 ATTAAAATCG
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
34 1 0.02
35 16 0.36
36 5 0.11
37 3 0.07
39 19 0.42
40 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (35 bp):
ATATATATATATTAAAATTTTATAAAATAAAAATA
Found at i:24936080 original size:20 final size:20
Alignment explanation
Indices: 24936009--24936081 Score: 51
Period size: 20 Copynumber: 3.7 Consensus size: 20
24935999 TTTAAAATTT
*
24936009 TATAAAATAAAAATAATA-A
1 TATAAATTAAAAATAATATA
* * * * *
24936028 TTTTATATTAAAATTTATTTA
1 -TATAAATTAAAAATAATATA
* *
24936049 AATATATT-AAAATAATATA
1 TATAAATTAAAAATAATATA
24936068 TATAAATTAAAAAT
1 TATAAATTAAAAAT
24936082 TAAAATCGAT
Statistics
Matches: 38, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
19 14 0.37
20 23 0.61
21 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TATAAATTAAAAATAATATA
Found at i:24939638 original size:14 final size:14
Alignment explanation
Indices: 24939619--24939646 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
24939609 TTCTTGTTTC
24939619 TTTTTCAGTCGTAT
1 TTTTTCAGTCGTAT
24939633 TTTTTCAGTCGTAT
1 TTTTTCAGTCGTAT
24939647 AAGAGTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.57
Consensus pattern (14 bp):
TTTTTCAGTCGTAT
Found at i:24958906 original size:13 final size:13
Alignment explanation
Indices: 24958888--24958912 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24958878 AAGGTATTAC
24958888 CCAAGCAATCCAA
1 CCAAGCAATCCAA
24958901 CCAAGCAATCCA
1 CCAAGCAATCCA
24958913 TTTGACTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.40, G:0.08, T:0.08
Consensus pattern (13 bp):
CCAAGCAATCCAA
Found at i:24961361 original size:22 final size:22
Alignment explanation
Indices: 24961314--24961382 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 22
24961304 TTTTAAATTT
* *
24961314 TATTAAATTTATATATAATCTT
1 TATTAAATTTATATATAATATA
*
24961336 TATTAAAATTTTTA-ATAATATA
1 TATT-AAATTTATATATAATATA
* *
24961358 TATTTATATTTATATTATATTATA
1 TA-TTAAATTTATA-TATAATATA
24961382 T
1 T
24961383 TTTTAAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
22 19 0.51
23 10 0.27
24 8 0.22
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (22 bp):
TATTAAATTTATATATAATATA
Found at i:24962454 original size:25 final size:22
Alignment explanation
Indices: 24962420--24962470 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
24962410 AAAAATATGA
*
24962420 AAAAAATATAACTATAAGTTTTAAT
1 AAAAAATATAA--ATAA-ATTTAAT
*
24962445 AAAAACTATAAATAAATTTAAT
1 AAAAAATATAAATAAATTTAAT
24962467 AAAA
1 AAAA
24962471 TAAAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.42
23 4 0.17
25 10 0.42
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAAAATATAAATAAATTTAAT
Found at i:24970655 original size:30 final size:31
Alignment explanation
Indices: 24970619--24970681 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
24970609 ACAGGAGGAA
*
24970619 AATGAAATACTT-ATATGATCGTCAAAGTGT
1 AATGAAATACTTCATATAATCGTCAAAGTGT
24970649 AATGAAATACTTCATATAATCGTCAAAGTGT
1 AATGAAATACTTCATATAATCGTCAAAGTGT
24970680 AA
1 AA
24970682 CTGAGTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 12 0.39
31 19 0.61
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (31 bp):
AATGAAATACTTCATATAATCGTCAAAGTGT
Found at i:24975059 original size:23 final size:22
Alignment explanation
Indices: 24975033--24975075 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
24975023 AATGACTCAA
24975033 ATTTCATAAGAAATTTATTTGAT
1 ATTT-ATAAGAAATTTATTTGAT
* *
24975056 ATTTGTTAGAAATTTATTTG
1 ATTTATAAGAAATTTATTTG
24975076 GAATTTGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (22 bp):
ATTTATAAGAAATTTATTTGAT
Found at i:24975066 original size:22 final size:22
Alignment explanation
Indices: 24975041--24975083 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
24975031 AAATTTCATA
24975041 AGAAATTTATTT-GATATTTGTT
1 AGAAATTTATTTGGA-ATTTGTT
24975063 AGAAATTTATTTGGAATTTGT
1 AGAAATTTATTTGGAATTTGT
24975084 CAAATATTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (22 bp):
AGAAATTTATTTGGAATTTGTT
Found at i:24975228 original size:52 final size:52
Alignment explanation
Indices: 24975118--24975236 Score: 125
Period size: 52 Copynumber: 2.3 Consensus size: 52
24975108 GACTTGTAAA
* * *
24975118 AAAAAAATTTTAAGAAAAAATAGATTCTTAATAAGTAAATTTAACTTGCAAG
1 AAAAGAATTTTAAGAAAAAATAGATTCTTAATAAGCAAATTTAACTTACAAG
* * * * *
24975170 AGAAGAATTTTAA-AAAGAAAT-GAATTCTTAATAGGCAAGTTTAACTTATAGG
1 AAAAGAATTTTAAGAAA-AAATAG-ATTCTTAATAAGCAAATTTAACTTACAAG
*
24975222 AAAAGAATTCTAAGA
1 AAAAGAATTTTAAGA
24975237 GGAGAGAAAT
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
51 4 0.07
52 49 0.91
53 1 0.02
ACGTcount: A:0.51, C:0.06, G:0.13, T:0.29
Consensus pattern (52 bp):
AAAAGAATTTTAAGAAAAAATAGATTCTTAATAAGCAAATTTAACTTACAAG
Found at i:24982451 original size:25 final size:25
Alignment explanation
Indices: 24982417--24982465 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
24982407 TTAAAAATAT
* *
24982417 ATATTATTTTAAAATAAATTATAAC
1 ATATAATTTTAAAATAAAATATAAC
* *
24982442 ATATAATTTTTATATAAAATATAA
1 ATATAATTTTAAAATAAAATATAA
24982466 AATAAATATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATAATTTTAAAATAAAATATAAC
Found at i:24984964 original size:18 final size:18
Alignment explanation
Indices: 24984941--24984976 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24984931 ATGTTCTTTT
* *
24984941 GCTACTATGTTGTTGATG
1 GCTACTATCTTGCTGATG
24984959 GCTACTATCTTGCTGATG
1 GCTACTATCTTGCTGATG
24984977 ATTGATTTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.17, G:0.25, T:0.42
Consensus pattern (18 bp):
GCTACTATCTTGCTGATG
Found at i:24985867 original size:24 final size:23
Alignment explanation
Indices: 24985815--24985867 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
24985805 ATAAATAATA
24985815 ATTATTTTTTCAATTTTAAAATT
1 ATTATTTTTTCAATTTTAAAATT
*
24985838 AATATTTCTTT-AATTATTAAATATT
1 ATTATTT-TTTCAATT-TTAAA-ATT
24985863 -TTATT
1 ATTATT
24985868 ATAATAACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 10 0.40
24 12 0.48
25 3 0.12
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTATTTTTTCAATTTTAAAATT
Found at i:24986286 original size:17 final size:14
Alignment explanation
Indices: 24986250--24986279 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
24986240 ATAATTCATG
24986250 TTTATTTTTTAATA
1 TTTATTTTTTAATA
24986264 TTTATTATTTTAATA
1 TTTATT-TTTTAATA
24986279 T
1 T
24986280 ATTTATTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTATTTTTTAATA
Found at i:24987932 original size:15 final size:15
Alignment explanation
Indices: 24987912--24987941 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
24987902 TAACTCAATA
24987912 TTCAAGCTAAACTCT
1 TTCAAGCTAAACTCT
24987927 TTCAAGCTAAACTCT
1 TTCAAGCTAAACTCT
24987942 CTCATCTCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (15 bp):
TTCAAGCTAAACTCT
Found at i:24993351 original size:21 final size:21
Alignment explanation
Indices: 24993313--24993352 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
24993303 GATGAATAAA
*
24993313 ATTAATTTTTATATTAATTTT
1 ATTAATTTTTATAATAATTTT
24993334 ATTAATATTTTA-AATAATT
1 ATTAAT-TTTTATAATAATT
24993353 ATGTTTGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTAATTTTTATAATAATTTT
Found at i:24996545 original size:17 final size:17
Alignment explanation
Indices: 24996523--24996557 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
24996513 GAGTTTTTTC
*
24996523 AATTGTATTATAAATAT
1 AATTGTATTAAAAATAT
24996540 AATTGTATTAAAAATAT
1 AATTGTATTAAAAATAT
24996557 A
1 A
24996558 TAAAAGTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (17 bp):
AATTGTATTAAAAATAT
Found at i:25008056 original size:24 final size:25
Alignment explanation
Indices: 25008020--25008066 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
25008010 ATTATATGAA
25008020 TAAAATATATAAAAATAA-TATAATT
1 TAAAATATATAAAAA-AATTATAATT
*
25008045 TAAAAT-TTTAAAAAAATTATAA
1 TAAAATATATAAAAAAATTATAA
25008067 ATAAATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 12 0.60
25 6 0.30
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
TAAAATATATAAAAAAATTATAATT
Found at i:25008060 original size:11 final size:11
Alignment explanation
Indices: 25008046--25008090 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
25008036 AATATAATTT
25008046 AAAATTTTAAA
1 AAAATTTTAAA
*
25008057 AAAATTATAAA
1 AAAATTTTAAA
* *
25008068 TAAA-TTTAAT
1 AAAATTTTAAA
25008078 AAAATTTTAAA
1 AAAATTTTAAA
25008089 AA
1 AA
25008091 TTATATTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
10 7 0.26
11 20 0.74
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATTTTAAA
Found at i:25008355 original size:13 final size:14
Alignment explanation
Indices: 25008330--25008363 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
25008320 TTATATTAAT
25008330 TAAAA-AAGAAAAA
1 TAAAAGAAGAAAAA
25008343 TAAAAGAAG-AAAA
1 TAAAAGAAGAAAAA
25008356 TAAAAGAA
1 TAAAAGAA
25008364 AGGGAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 17 0.85
14 3 0.15
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (14 bp):
TAAAAGAAGAAAAA
Found at i:25008773 original size:17 final size:16
Alignment explanation
Indices: 25008724--25008774 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
25008714 ATATAGTCTA
*
25008724 AATTATTTTTAAATTT
1 AATTATTTTTAAAATT
* **
25008740 AATTTTTTTTATTATT
1 AATTATTTTTAAAATT
25008756 AATTATATTTTAAAATT
1 AATTAT-TTTTAAAATT
25008773 AA
1 AA
25008775 AAAAAATCGT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
16 17 0.63
17 10 0.37
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
AATTATTTTTAAAATT
Found at i:25009869 original size:21 final size:21
Alignment explanation
Indices: 25009818--25009869 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
25009808 TTAATTATTT
25009818 AATTTTATATTTATATTTAAAA
1 AATTTTAT-TTTATATTTAAAA
**
25009840 AATAATATTTTATA-TTAAAA
1 AATTTTATTTTATATTTAAAA
25009860 ATATTTTATT
1 A-ATTTTATT
25009870 AATTTTGACT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 7 0.28
21 12 0.48
22 6 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AATTTTATTTTATATTTAAAA
Found at i:25009986 original size:22 final size:23
Alignment explanation
Indices: 25009938--25009989 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
25009928 CAAACAAAAA
* *
25009938 ATAATATTTTAATATTAAATTAG
1 ATAAAATTTAAATATTAAATTAG
*
25009961 ATAAAATTTAAATATTAAA-TAT
1 ATAAAATTTAAATATTAAATTAG
25009983 ATAAAAT
1 ATAAAAT
25009990 CAAATGACGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
ATAAAATTTAAATATTAAATTAG
Found at i:25024622 original size:42 final size:42
Alignment explanation
Indices: 25024558--25024664 Score: 182
Period size: 42 Copynumber: 2.6 Consensus size: 42
25024548 TTTTATGTAG
25024558 CCCAAAAAA-ATGGGCCTCGGTTCACTTGGAGAAGTTTCTGA
1 CCCAAAAAATATGGGCCTCGGTTCACTTGGAGAAGTTTCTGA
25024599 CCCAAAAAATATGGGCC-CAGGTTCACTTGGAGAAGTTTCTGA
1 CCCAAAAAATATGGGCCTC-GGTTCACTTGGAGAAGTTTCTGA
*
25024641 CCCAAAAAATATGGGCTTCGGTTC
1 CCCAAAAAATATGGGCCTCGGTTC
25024665 CATATGTCCA
Statistics
Matches: 62, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
41 10 0.16
42 51 0.82
43 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.24
Consensus pattern (42 bp):
CCCAAAAAATATGGGCCTCGGTTCACTTGGAGAAGTTTCTGA
Found at i:25031805 original size:5 final size:5
Alignment explanation
Indices: 25031795--25031819 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
25031785 TTGATATATA
25031795 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
25031820 GATATTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:25033068 original size:2 final size:2
Alignment explanation
Indices: 25033061--25033096 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
25033051 CTGAAGGAAA
25033061 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25033097 TGGGACGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25037956 original size:18 final size:18
Alignment explanation
Indices: 25037916--25037957 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
25037906 GATGGGTGCC
25037916 TCATTGGGCCTGATGTAG
1 TCATTGGGCCTGATGTAG
* *
25037934 CCATTGGTCCTGGATGTA-
1 TCATTGGGCCT-GATGTAG
25037952 TCATTG
1 TCATTG
25037958 AGTCTGGGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.36
Consensus pattern (18 bp):
TCATTGGGCCTGATGTAG
Found at i:25039438 original size:25 final size:25
Alignment explanation
Indices: 25039404--25039454 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
25039394 ATTCAAGAAG
25039404 GATTAGCCAGGTGATGCACAATTTT
1 GATTAGCCAGGTGATGCACAATTTT
25039429 GATTAGCCAGGTGATGCACAATTTT
1 GATTAGCCAGGTGATGCACAATTTT
25039454 G
1 G
25039455 GCTGAAGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (25 bp):
GATTAGCCAGGTGATGCACAATTTT
Found at i:25055076 original size:14 final size:15
Alignment explanation
Indices: 25055053--25055094 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
25055043 AGATGCTTTA
*
25055053 TTTTTTTGGA-AGCC
1 TTTTTCTGGAGAGCC
* *
25055067 TTTTTGTGGAGTGCC
1 TTTTTCTGGAGAGCC
25055082 TTTTTCTGGAGAG
1 TTTTTCTGGAGAG
25055095 ATGGTTGGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.12, C:0.12, G:0.29, T:0.48
Consensus pattern (15 bp):
TTTTTCTGGAGAGCC
Found at i:25055484 original size:13 final size:13
Alignment explanation
Indices: 25055441--25055475 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
25055431 GTCCGTAAAA
25055441 CATTTTTATCTTT
1 CATTTTTATCTTT
25055454 CATTTTTATCTTT
1 CATTTTTATCTTT
*
25055467 GATTTTTAT
1 CATTTTTAT
25055476 ATTATATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.17, C:0.11, G:0.03, T:0.69
Consensus pattern (13 bp):
CATTTTTATCTTT
Found at i:25057152 original size:15 final size:14
Alignment explanation
Indices: 25057132--25057165 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
25057122 TAAAAAAAAC
*
25057132 AAAAAAATAAGTAAT
1 AAAAAAATAAAT-AT
25057147 AAAAAAATAAATAT
1 AAAAAAATAAATAT
25057161 AAAAA
1 AAAAA
25057166 TTGAACTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (14 bp):
AAAAAAATAAATAT
Found at i:25057340 original size:13 final size:13
Alignment explanation
Indices: 25057324--25057350 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25057314 TATTCAGTTC
25057324 ATATATTAAATTT
1 ATATATTAAATTT
25057337 ATATATTAAATTT
1 ATATATTAAATTT
25057350 A
1 A
25057351 GATTAAACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATATTAAATTT
Found at i:25058340 original size:22 final size:21
Alignment explanation
Indices: 25058310--25058350 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
25058300 TTAGTGTAAA
*
25058310 ATAT-TAAAATTTATATATTT
1 ATATATAAAAATTATATATTT
25058330 ATATATAAAAATTATATATTT
1 ATATATAAAAATTATATATTT
25058351 TTTGTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATATAAAAATTATATATTT
Found at i:25058780 original size:16 final size:15
Alignment explanation
Indices: 25058761--25058821 Score: 54
Period size: 16 Copynumber: 4.1 Consensus size: 15
25058751 TTTATTTTTA
25058761 TATATATTTATATAAT
1 TATAT-TTTATATAAT
* *
25058777 TATATTTTTAAATATT
1 TATA-TTTTATATAAT
*
25058793 TATATTTTA-AAAAT
1 TATATTTTATATAAT
*
25058807 AATATTTTAT-TAAT
1 TATATTTTATATAAT
25058821 T
1 T
25058822 TCGAATAATG
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
14 14 0.39
15 5 0.14
16 16 0.44
17 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATATTTTATATAAT
Found at i:25065536 original size:185 final size:185
Alignment explanation
Indices: 25065224--25065591 Score: 736
Period size: 185 Copynumber: 2.0 Consensus size: 185
25065214 GCATGACGGG
25065224 AAGTTCAATGAAATAGTCTCAGTATTAAATCAAAGAAAGATAAACGGATATTGGACCATTTAATT
1 AAGTTCAATGAAATAGTCTCAGTATTAAATCAAAGAAAGATAAACGGATATTGGACCATTTAATT
25065289 AATAGCTTTGAACATCATAATTTGATGGCTACCGTTTGGTTCAGGTGGTGAATGCACAGATTGAA
66 AATAGCTTTGAACATCATAATTTGATGGCTACCGTTTGGTTCAGGTGGTGAATGCACAGATTGAA
25065354 ATACTCATTTAGAATCAGAATGCGTTTGATGAATAATTTGTAAATAAATTTTACA
131 ATACTCATTTAGAATCAGAATGCGTTTGATGAATAATTTGTAAATAAATTTTACA
25065409 AAGTTCAATGAAATAGTCTCAGTATTAAATCAAAGAAAGATAAACGGATATTGGACCATTTAATT
1 AAGTTCAATGAAATAGTCTCAGTATTAAATCAAAGAAAGATAAACGGATATTGGACCATTTAATT
25065474 AATAGCTTTGAACATCATAATTTGATGGCTACCGTTTGGTTCAGGTGGTGAATGCACAGATTGAA
66 AATAGCTTTGAACATCATAATTTGATGGCTACCGTTTGGTTCAGGTGGTGAATGCACAGATTGAA
25065539 ATACTCATTTAGAATCAGAATGCGTTTGATGAATAATTTGTAAATAAATTTTA
131 ATACTCATTTAGAATCAGAATGCGTTTGATGAATAATTTGTAAATAAATTTTA
25065592 TTTATATTTA
Statistics
Matches: 183, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
185 183 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (185 bp):
AAGTTCAATGAAATAGTCTCAGTATTAAATCAAAGAAAGATAAACGGATATTGGACCATTTAATT
AATAGCTTTGAACATCATAATTTGATGGCTACCGTTTGGTTCAGGTGGTGAATGCACAGATTGAA
ATACTCATTTAGAATCAGAATGCGTTTGATGAATAATTTGTAAATAAATTTTACA
Found at i:25074474 original size:20 final size:19
Alignment explanation
Indices: 25074451--25074494 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
25074441 TTAAATTAAA
*
25074451 TTATATATTTTTATTAATTT
1 TTATATATTTTTA-AAATTT
25074471 TTATATATTTTTAAAATTT
1 TTATATATTTTTAAAATTT
25074490 TTATA
1 TTATA
25074495 AAATAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATATATTTTTAAAATTT
Found at i:25074498 original size:11 final size:10
Alignment explanation
Indices: 25074451--25074496 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
25074441 TTAAATTAAA
*
25074451 TTATATATTT
1 TTATAAATTT
*
25074461 TTATTAATTT
1 TTATAAATTT
*
25074471 TTATATATTT
1 TTATAAATTT
25074481 TTA-AAATTT
1 TTATAAATTT
25074490 TTATAAA
1 TTATAAA
25074497 ATAAAATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TTATAAATTT
Found at i:25081562 original size:11 final size:11
Alignment explanation
Indices: 25081546--25081580 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
25081536 CATGTTTGTC
*
25081546 ACTCAATCTCA
1 ACTCAAACTCA
25081557 ACTCAAACTCAA
1 ACTCAAACTC-A
25081569 ACTCAAACTCA
1 ACTCAAACTCA
25081580 A
1 A
25081581 ACGAAATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (11 bp):
ACTCAAACTCA
Found at i:25081565 original size:6 final size:6
Alignment explanation
Indices: 25081546--25081582 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
25081536 CATGTTTGTC
*
25081546 ACTCAA TCTC-A ACTCAA ACTCAA ACTCAA ACTCAA AC
1 ACTCAA ACTCAA ACTCAA ACTCAA ACTCAA ACTCAA AC
25081583 GAAATCTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (6 bp):
ACTCAA
Found at i:25083799 original size:29 final size:30
Alignment explanation
Indices: 25083766--25083839 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
25083756 ACTCACGTTC
25083766 TTGTATATATTCATACTAATC-GTATCTAT
1 TTGTATATATTCATACTAATCAGTATCTAT
* ** *
25083795 TTGTATATATTTATGTTAATCAGTGTCTAT
1 TTGTATATATTCATACTAATCAGTATCTAT
*
25083825 TCGTATATATTCATA
1 TTGTATATATTCATA
25083840 TTATTTATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 18 0.49
30 19 0.51
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (30 bp):
TTGTATATATTCATACTAATCAGTATCTAT
Found at i:25085974 original size:6 final size:6
Alignment explanation
Indices: 25085941--25086005 Score: 55
Period size: 6 Copynumber: 10.7 Consensus size: 6
25085931 GTTGAATTTG
* *
25085941 ATTTAAA ATTTATT ATTTAA AATT-A ATTTAA ATTT-A A-TTAA ATTTTAA
1 ATTT-AA ATTTA-A ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A-TTTAA
25085989 TATTTAA ATTTAA ATTT
1 -ATTTAA ATTTAA ATTT
25086006 GATTAAGATA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
4 2 0.04
5 8 0.17
6 19 0.40
7 18 0.38
8 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
ATTTAA
Found at i:25085985 original size:10 final size:11
Alignment explanation
Indices: 25085935--25086001 Score: 55
Period size: 11 Copynumber: 5.6 Consensus size: 11
25085925 TTTCAGGTTG
*
25085935 AATTTGATTTAA
1 AATTTAATTT-A
25085947 AATTTATTATTTA
1 AATTTA--ATTTA
*
25085960 AAATTAATTTA
1 AATTTAATTTA
25085971 AATTTAA-TTA
1 AATTTAATTTA
25085981 AATTTTAATATTTA
1 AA-TTT-A-ATTTA
25085995 AATTTAA
1 AATTTAA
25086002 ATTTGATTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
10 5 0.11
11 15 0.33
12 7 0.15
13 10 0.22
14 9 0.20
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (11 bp):
AATTTAATTTA
Found at i:25086186 original size:17 final size:16
Alignment explanation
Indices: 25086164--25086215 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 16
25086154 ATTGAAATAA
25086164 TAAAATTTATTAAAATT
1 TAAAATTTATT-AAATT
25086181 TAAAATTTTAATTAAATT
1 TAAAA-TTT-ATTAAATT
* *
25086199 TATAAGTTATTCAAATT
1 TAAAATTTATT-AAATT
25086216 AAATTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 3 0.10
17 12 0.40
18 12 0.40
19 3 0.10
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
TAAAATTTATTAAATT
Found at i:25086190 original size:18 final size:17
Alignment explanation
Indices: 25086149--25086200 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
25086139 AAAAATAATT
*
25086149 ATTTAATTGAAATAATAAA
1 ATTTAATT-AAAT-TTAAA
25086168 ATTT-ATTAAAATTTAAA
1 ATTTAATT-AAATTTAAA
25086185 ATTTTAATTAAATTTA
1 A-TTTAATTAAATTTA
25086201 TAAGTTATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 5 0.17
18 17 0.59
19 7 0.24
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
ATTTAATTAAATTTAAA
Found at i:25086313 original size:11 final size:11
Alignment explanation
Indices: 25086292--25086328 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
25086282 AATAATAAAC
25086292 AAATTAAATTT
1 AAATTAAATTT
**
25086303 AAATTTTATTT
1 AAATTAAATTT
25086314 AAATTAAATTT
1 AAATTAAATTT
25086325 AAAT
1 AAAT
25086329 AATTTACAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
AAATTAAATTT
Found at i:25086339 original size:22 final size:20
Alignment explanation
Indices: 25086290--25086339 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 20
25086280 TCAATAATAA
25086290 ACAAATTAAATTTAAATTTT
1 ACAAATTAAATTTAAATTTT
*
25086310 ATTTAAATTAAATTTAAATAATTT
1 A--CAAATTAAATTTAAAT--TTT
25086334 ACAAAT
1 ACAAAT
25086340 ATTAATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
20 1 0.04
22 19 0.79
24 4 0.17
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (20 bp):
ACAAATTAAATTTAAATTTT
Found at i:25087303 original size:13 final size:14
Alignment explanation
Indices: 25087276--25087305 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
25087266 AAATTTGAAT
25087276 TTTATTGATAATTA
1 TTTATTGATAATTA
25087290 TTTATTGA-AATTA
1 TTTATTGATAATTA
25087303 TTT
1 TTT
25087306 TAAATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (14 bp):
TTTATTGATAATTA
Found at i:25087307 original size:14 final size:15
Alignment explanation
Indices: 25087274--25087307 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
25087264 TTAAATTTGA
25087274 ATTTTATTGATAATT
1 ATTTTATTGATAATT
25087289 A-TTTATTGA-AATT
1 ATTTTATTGATAATT
25087302 ATTTTA
1 ATTTTA
25087308 AATATATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.28
14 12 0.67
15 1 0.06
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (15 bp):
ATTTTATTGATAATT
Found at i:25087342 original size:27 final size:29
Alignment explanation
Indices: 25087300--25087357 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 29
25087290 TTTATTGAAA
*
25087300 TTATTTTAAATATATTATATATAAT-TAT
1 TTATTTTAAATATATTAAATATAATATAT
25087328 TTATTTTAAAT-TATTAAATATAATATAT
1 TTATTTTAAATATATTAAATATAATATAT
25087356 TT
1 TT
25087358 TATCTTGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 12 0.43
28 16 0.57
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (29 bp):
TTATTTTAAATATATTAAATATAATATAT
Found at i:25087356 original size:24 final size:27
Alignment explanation
Indices: 25087299--25087359 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
25087289 ATTTATTGAA
*
25087299 ATTATTTTAAATATATTATATATAATT
1 ATTATTTTAAATATATTAAATATAATT
25087326 ATTTATTTTAAAT-TATTAAATATAA-T
1 A-TTATTTTAAATATATTAAATATAATT
25087352 A-TATTTTA
1 ATTATTTTA
25087360 TCTTGATAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
24 7 0.22
26 2 0.06
27 12 0.38
28 11 0.34
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
ATTATTTTAAATATATTAAATATAATT
Found at i:25093189 original size:2 final size:2
Alignment explanation
Indices: 25093184--25093218 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
25093174 TGATAATCAT
25093184 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25093219 TCCATACCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25095413 original size:18 final size:18
Alignment explanation
Indices: 25095386--25095443 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
25095376 TGTGAATAAT
25095386 AATA-TTAAATTTAAATA
1 AATATTTAAATTTAAATA
* **
25095403 AATATTTAAATTCATTTA
1 AATATTTAAATTTAAATA
*
25095421 AATATTATAAATATTAAACA
1 AATATT-TAAAT-TTAAATA
25095441 AAT
1 AAT
25095444 TTAAATAAGA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
17 4 0.13
18 16 0.52
19 5 0.16
20 6 0.19
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
AATATTTAAATTTAAATA
Found at i:25097827 original size:64 final size:63
Alignment explanation
Indices: 25097721--25097851 Score: 158
Period size: 65 Copynumber: 2.1 Consensus size: 63
25097711 ATATCATTAA
* * ** * **
25097721 TAAAAAAAATGAGAATTATTTGAAGATATTTTTGAT-TGAAAAATATTTTAAATAATCTACTT
1 TAAAAAAAATGAGAATTATTTGAAAATATTTTTAATCAAAAAAATACTTTAAATAAAATACTT
25097783 TAAAAAAATATGAATGAATTATTT-AAAATATTTTTAATCAAAAAAATACTTTAAATAAAATACT
1 TAAAAAAA-ATG-A-GAATTATTTGAAAATATTTTTAATCAAAAAAATACTTTAAATAAAATACT
25097847 T
63 T
25097848 TAAA
1 TAAA
25097852 TAATTTCAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
62 8 0.14
63 3 0.05
64 13 0.22
65 34 0.59
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (63 bp):
TAAAAAAAATGAGAATTATTTGAAAATATTTTTAATCAAAAAAATACTTTAAATAAAATACTT
Found at i:25097844 original size:14 final size:14
Alignment explanation
Indices: 25097825--25097854 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
25097815 TTTAATCAAA
25097825 AAAATACTTTAAAT
1 AAAATACTTTAAAT
25097839 AAAATACTTTAAAT
1 AAAATACTTTAAAT
25097853 AA
1 AA
25097855 TTTCAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAATACTTTAAAT
Found at i:25098054 original size:24 final size:24
Alignment explanation
Indices: 25098017--25098063 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
25098007 TATTTTTTAA
*
25098017 TAAAAATATCTTAAATAATAATTTT
1 TAAAAATATATTAAA-AATAATTTT
*
25098042 TAAAAA-ATATTAAAAATTATTT
1 TAAAAATATATTAAAAATAATTT
25098064 AAGCGTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 7 0.35
25 6 0.30
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TAAAAATATATTAAAAATAATTTT
Found at i:25098107 original size:17 final size:18
Alignment explanation
Indices: 25098085--25098128 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
25098075 GAAAACGCTT
25098085 TAAATAATTTTGA-TGAA
1 TAAATAATTTTGATTGAA
*
25098102 TAAATATTTTTGATTGAA
1 TAAATAATTTTGATTGAA
25098120 -AAAT-ATTTT
1 TAAATAATTTT
25098129 AAATAATCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 4 0.17
17 16 0.67
18 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (18 bp):
TAAATAATTTTGATTGAA
Found at i:25098185 original size:63 final size:61
Alignment explanation
Indices: 25098103--25098292 Score: 186
Period size: 63 Copynumber: 3.0 Consensus size: 61
25098093 TTTGATGAAT
* ** *
25098103 AAATATTTTTGATTGAAAAATATTTTAAATAATCTATTTTAAAAAATATGAATGGATTATTTA
1 AAATATTTTTAATAAAAAAATATTTTAAATAAT-TATTTTAAAAAATAT-AATGAATTATTTA
* * * ** *
25098166 AAATATTTTTAATCAAAAAAATACTTTAAATAATTTCAATATAAAAAATA-AAAAAATTATTCA
1 AAATATTTTTAAT-AAAAAAATATTTTAAATAA-TT-ATTTTAAAAAATATAATGAATTATTTA
* * * *
25098229 AAGTATTTTTTAATAAAAAAATATCTTAAATAATTTTTTTAAAAAA-ATTATGAATTATTTA
1 AAATA-TTTTTAATAAAAAAATATTTTAAATAATTATTTTAAAAAATATAATGAATTATTTA
25098290 AAA
1 AAA
25098293 CGTTTTTGAT
Statistics
Matches: 101, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
60 1 0.01
61 19 0.19
62 2 0.02
63 42 0.42
64 25 0.25
65 12 0.12
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.41
Consensus pattern (61 bp):
AAATATTTTTAATAAAAAAATATTTTAAATAATTATTTTAAAAAATATAATGAATTATTTA
Found at i:25098244 original size:28 final size:29
Alignment explanation
Indices: 25098212--25098279 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 29
25098202 CAATATAAAA
25098212 AATAAAAAAATTAT-TCAAAGT-ATTTTTT
1 AATAAAAAAATTATCTCAAA-TAATTTTTT
*
25098240 AATAAAAAAA-TATCTTAAATAATTTTTT
1 AATAAAAAAATTATCTCAAATAATTTTTT
25098268 --TAAAAAAATTAT
1 AATAAAAAAATTAT
25098280 GAATTATTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
26 8 0.22
27 7 0.19
28 21 0.58
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (29 bp):
AATAAAAAAATTATCTCAAATAATTTTTT
Found at i:25102122 original size:33 final size:33
Alignment explanation
Indices: 25102040--25102136 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 33
25102030 TGCAAGCTCA
** ** *
25102040 TATCATAAGCCTCAGACATCAAGTTGCTCCTTT
1 TATCATAAGCCTCAGATTTCAAGTTATTTCTTT
*
25102073 TATCATAAACCTCAGATTTCAAGTTATTTCTTT
1 TATCATAAGCCTCAGATTTCAAGTTATTTCTTT
*
25102106 TATCATAAGCCTCAGATTTCAAATTATTTCT
1 TATCATAAGCCTCAGATTTCAAGTTATTTCT
25102137 ATTACAATAA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (33 bp):
TATCATAAGCCTCAGATTTCAAGTTATTTCTTT
Found at i:25102147 original size:33 final size:33
Alignment explanation
Indices: 25102040--25102164 Score: 117
Period size: 33 Copynumber: 3.8 Consensus size: 33
25102030 TGCAAGCTCA
** * ** * *
25102040 TATCATAAGCCTCAGACATCAAGTTGCTCCTTT
1 TATCATAAGCCTCAGATTTCAAATTATTTCTAT
* * *
25102073 TATCATAAACCTCAGATTTCAAGTTATTTCTTT
1 TATCATAAGCCTCAGATTTCAAATTATTTCTAT
25102106 TATCATAAGCCTCAGATTTCAAATTATTTCTAT
1 TATCATAAGCCTCAGATTTCAAATTATTTCTAT
* * *
25102139 TA-CAATAAGGCTCGGACTTCAAATTA
1 TATC-ATAAGCCTCAGATTTCAAATTA
25102165 CTTGTCTTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
32 1 0.01
33 78 0.99
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.38
Consensus pattern (33 bp):
TATCATAAGCCTCAGATTTCAAATTATTTCTAT
Found at i:25104202 original size:17 final size:17
Alignment explanation
Indices: 25104182--25104225 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
25104172 ATCATGAGTG
*
25104182 ATAAAATTATCTTAATA
1 ATAAAATTATCTCAATA
25104199 ATAAAATTATCTCAATA
1 ATAAAATTATCTCAATA
25104216 A-ATAAATTAT
1 ATA-AAATTAT
25104226 TATGATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 1 0.04
17 24 0.96
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (17 bp):
ATAAAATTATCTCAATA
Found at i:25104939 original size:78 final size:79
Alignment explanation
Indices: 25104805--25104950 Score: 249
Period size: 78 Copynumber: 1.9 Consensus size: 79
25104795 TGTGACTTAA
* *
25104805 TTATCTATTATAATGTGGAAGCAGGACCCAATGATTCTCGCTGGTTCAGTGGAGAGCGT-GGTTC
1 TTATATATTATAATGTGGAAGCAGGACCAAATGATTCTCGCTGGTTCAGTGGAGAGCGTAGGTTC
25104869 CCCTGGAGAACGAG
66 CCCTGGAGAACGAG
* *
25104883 TTATATATTATAGTGTGGAAGCAGGACCAAATGATTCTCGCTGGTTCAGTGGAGAGCGTAGTTTC
1 TTATATATTATAATGTGGAAGCAGGACCAAATGATTCTCGCTGGTTCAGTGGAGAGCGTAGGTTC
25104948 CCC
66 CCC
25104951 GAAGAACAAG
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
78 56 0.89
79 7 0.11
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (79 bp):
TTATATATTATAATGTGGAAGCAGGACCAAATGATTCTCGCTGGTTCAGTGGAGAGCGTAGGTTC
CCCTGGAGAACGAG
Found at i:25107857 original size:28 final size:28
Alignment explanation
Indices: 25107825--25107878 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
25107815 GTTGGTCATG
* *
25107825 AGATATAAGTGTTCACACCACTATCTTA
1 AGATATAAGGGTTCACACCACCATCTTA
25107853 AGATATAAGGGTTCACACCACCATCT
1 AGATATAAGGGTTCACACCACCATCT
25107879 CTTTGGGAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (28 bp):
AGATATAAGGGTTCACACCACCATCTTA
Found at i:25108737 original size:104 final size:103
Alignment explanation
Indices: 25108609--25108798 Score: 310
Period size: 104 Copynumber: 1.8 Consensus size: 103
25108599 TCTAGTTACA
**
25108609 TTTATGGCTAAATCCCTAGAATCAAGGTTAAAATCAAAGAATTACAAATATTTACAATCAATCAA
1 TTTATGGCTAAATCCCTAGAATCAAGACTAAAATCAAAGAATTACAAATA-TTACAATCAATCAA
25108674 GATTCTATC-TCTTGAATTATAGAGTCGGCTCTTGTTGAT
65 GATTCTATCTTC-TGAATTATAGAGTCGGCTCTTGTTGAT
* *
25108713 TTTATGGCTAAATCCCTAGAATCAAGACTAAAATCAAGGAATTACAAATATTACAATCAATTAAG
1 TTTATGGCTAAATCCCTAGAATCAAGACTAAAATCAAAGAATTACAAATATTACAATCAATCAAG
*
25108778 ATTTTATCTTCTGAATTATAG
66 ATTCTATCTTCTGAATTATAG
25108799 GATCAACCGG
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
103 31 0.39
104 49 0.61
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (103 bp):
TTTATGGCTAAATCCCTAGAATCAAGACTAAAATCAAAGAATTACAAATATTACAATCAATCAAG
ATTCTATCTTCTGAATTATAGAGTCGGCTCTTGTTGAT
Found at i:25133468 original size:2 final size:2
Alignment explanation
Indices: 25133461--25133492 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
25133451 AACATTCTTA
25133461 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25133493 GGAAATGGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25136597 original size:14 final size:15
Alignment explanation
Indices: 25136572--25136601 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
25136562 ATTAAATCAA
25136572 TTTAATTCAATTAAT
1 TTTAATTCAATTAAT
25136587 TTTAATT-AATTAAT
1 TTTAATTCAATTAAT
25136601 T
1 T
25136602 AAAATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTAATTCAATTAAT
Found at i:25137978 original size:16 final size:16
Alignment explanation
Indices: 25137918--25137971 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
25137908 AGTTCTCTTT
*
25137918 ATTAATATTAAAATTA
1 ATTAATAATAAAATTA
*
25137934 ATTAATAATTAAA-TA
1 ATTAATAATAAAATTA
25137949 TATTAATAATAAAATTA
1 -ATTAATAATAAAATTA
25137966 ATTAAT
1 ATTAAT
25137972 TAAAAAACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 2 0.06
16 29 0.88
17 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATTAATAATAAAATTA
Found at i:25139179 original size:8 final size:7
Alignment explanation
Indices: 25139149--25139176 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
25139139 GGTTCAGATA
25139149 ATTTTTT
1 ATTTTTT
25139156 ATTTTTT
1 ATTTTTT
25139163 ATTTTTT
1 ATTTTTT
25139170 ATTTTTT
1 ATTTTTT
25139177 TATATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
ATTTTTT
Found at i:25139651 original size:16 final size:15
Alignment explanation
Indices: 25139602--25139721 Score: 83
Period size: 14 Copynumber: 8.2 Consensus size: 15
25139592 CTCGAAATTG
* *
25139602 AAACCCTTAATCTTT
1 AAACCCTAAAACTTT
*
25139617 CAAACCTTAAAAC--T
1 -AAACCCTAAAACTTT
25139631 AAACCCTAAAACCTTT
1 AAACCCTAAAA-CTTT
*
25139647 AAACCCTAAAA-TTA
1 AAACCCTAAAACTTT
25139661 AAACCCT-AAACTGTT
1 AAACCCTAAAACT-TT
*
25139676 AAAACCCTAAAAC-TA
1 -AAACCCTAAAACTTT
* *
25139691 AAACCC-CAAACTTC
1 AAACCCTAAAACTTT
*
25139705 AAATCCTAAAA-TTT
1 AAACCCTAAAACTTT
25139719 AAA
1 AAA
25139722 ACTTTAAAAT
Statistics
Matches: 83, Mismatches: 12, Indels: 20
0.72 0.10 0.17
Matches are distributed among these distances:
13 17 0.20
14 29 0.35
15 5 0.06
16 28 0.34
17 4 0.05
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.24
Consensus pattern (15 bp):
AAACCCTAAAACTTT
Found at i:25139667 original size:30 final size:29
Alignment explanation
Indices: 25139596--25139723 Score: 109
Period size: 30 Copynumber: 4.3 Consensus size: 29
25139586 CAAAACCTCG
* * * *
25139596 AAATTGAAACCCTTAATCTTTCAAACCTTA
1 AAATTAAAACCC-TAAACTTTAAAACCCTA
*
25139626 AAACT-AAACCCTAAAACCTTT-AAACCCTA
1 AAATTAAAACCCT-AAA-CTTTAAAACCCTA
25139655 AAATTAAAACCCTAAACTGTTAAAACCCTA
1 AAATTAAAACCCTAAACT-TTAAAACCCTA
* * * *
25139685 AAACTAAAACCCCAAAC-TTCAAATCCTA
1 AAATTAAAACCCTAAACTTTAAAACCCTA
25139713 AAATTTAAAAC
1 AAA-TTAAAAC
25139724 TTTAAAATCC
Statistics
Matches: 83, Mismatches: 9, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
28 15 0.18
29 30 0.36
30 38 0.46
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (29 bp):
AAATTAAAACCCTAAACTTTAAAACCCTA
Found at i:25139681 original size:59 final size:58
Alignment explanation
Indices: 25139596--25139723 Score: 143
Period size: 59 Copynumber: 2.2 Consensus size: 58
25139586 CAAAACCTCG
* * * * *
25139596 AAATTGAAACCCTTAATCTTTCAAACCTTAAAACT-AAACCCTAAAACCTTTAAACCCTA
1 AAATTAAAACCCTTAAACTTTAAAACCCTAAAACTAAAACCC-AAAA-CTTCAAACCCTA
* *
25139655 AAATTAAAACCC-TAAACTGTTAAAACCCTAAAACTAAAACCCCAAACTTCAAATCCTA
1 AAATTAAAACCCTTAAACT-TTAAAACCCTAAAACTAAAACCCAAAACTTCAAACCCTA
25139713 AAATTTAAAAC
1 AAA-TTAAAAC
25139724 TTTAAAATCC
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
58 18 0.31
59 35 0.59
60 6 0.10
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (58 bp):
AAATTAAAACCCTTAAACTTTAAAACCCTAAAACTAAAACCCAAAACTTCAAACCCTA
Found at i:25147780 original size:2 final size:2
Alignment explanation
Indices: 25147773--25147798 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25147763 AACATTCTTA
25147773 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
25147799 GGAAATGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25150911 original size:14 final size:15
Alignment explanation
Indices: 25150886--25150915 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
25150876 ATTAAATCAA
25150886 TTTAATTCAATTAAT
1 TTTAATTCAATTAAT
25150901 TTTAATT-AATTAAT
1 TTTAATTCAATTAAT
25150915 T
1 T
25150916 AAAATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTAATTCAATTAAT
Found at i:25152276 original size:16 final size:16
Alignment explanation
Indices: 25152232--25152269 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
25152222 AGTTCTGTTT
*
25152232 ATTAATATTAAAATTA
1 ATTAATAATAAAATTA
25152248 ATTAATAATAAAATTA
1 ATTAATAATAAAATTA
25152264 ATTAAT
1 ATTAAT
25152270 TAAAAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTAATAATAAAATTA
Found at i:25153654 original size:16 final size:16
Alignment explanation
Indices: 25153560--25153657 Score: 54
Period size: 16 Copynumber: 5.8 Consensus size: 16
25153550 TGTTGTTTCA
* *
25153560 TAATAATAATAATTAT
1 TAATAATAAAAAATAT
*
25153576 TAATAATAAAATAA-AA
1 TAATAATAAAA-AATAT
* *
25153592 TGATAATAAATGAGAATAA
1 TAATAATAAA--A-AATAT
* * *
25153611 TAACAAAAAAAAATTT
1 TAATAATAAAAAATAT
*
25153627 TAAAAATCTAAAAAATAT
1 TAATAA--TAAAAAATAT
25153645 TAATAATAAAAAA
1 TAATAATAAAAAA
25153658 AAAATTCTCT
Statistics
Matches: 62, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
16 35 0.56
17 2 0.03
18 16 0.26
19 9 0.15
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (16 bp):
TAATAATAAAAAATAT
Found at i:25153657 original size:18 final size:18
Alignment explanation
Indices: 25153616--25153659 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
25153606 AATAATAACA
*
25153616 AAAAAAAATTTTAAAAAT
1 AAAAAAAATATTAAAAAT
** *
25153634 CTAAAAAATATTAATAAT
1 AAAAAAAATATTAAAAAT
25153652 AAAAAAAA
1 AAAAAAAA
25153660 AATTCTCTCT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAAAAAATATTAAAAAT
Found at i:25153939 original size:16 final size:15
Alignment explanation
Indices: 25153890--25154009 Score: 83
Period size: 14 Copynumber: 8.2 Consensus size: 15
25153880 CTCGAAATTG
* *
25153890 AAACCCTTAATCTTT
1 AAACCCTAAAACTTT
*
25153905 CAAACCTTAAAAC--T
1 -AAACCCTAAAACTTT
25153919 AAACCCTAAAACCTTT
1 AAACCCTAAAA-CTTT
*
25153935 AAACCCTAAAA-TTA
1 AAACCCTAAAACTTT
25153949 AAACCCT-AAACTGTT
1 AAACCCTAAAACT-TT
*
25153964 AAAACCCTAAAAC-TA
1 -AAACCCTAAAACTTT
* *
25153979 AAACCC-CAAACTTC
1 AAACCCTAAAACTTT
*
25153993 AAATCCTAAAA-TTT
1 AAACCCTAAAACTTT
25154007 AAA
1 AAA
25154010 ACTTTAAAAT
Statistics
Matches: 83, Mismatches: 12, Indels: 20
0.72 0.10 0.17
Matches are distributed among these distances:
13 17 0.20
14 29 0.35
15 5 0.06
16 28 0.34
17 4 0.05
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.24
Consensus pattern (15 bp):
AAACCCTAAAACTTT
Found at i:25153955 original size:30 final size:29
Alignment explanation
Indices: 25153884--25154011 Score: 109
Period size: 30 Copynumber: 4.3 Consensus size: 29
25153874 CAAAACCTCG
* * * *
25153884 AAATTGAAACCCTTAATCTTTCAAACCTTA
1 AAATTAAAACCC-TAAACTTTAAAACCCTA
*
25153914 AAACT-AAACCCTAAAACCTTT-AAACCCTA
1 AAATTAAAACCCT-AAA-CTTTAAAACCCTA
25153943 AAATTAAAACCCTAAACTGTTAAAACCCTA
1 AAATTAAAACCCTAAACT-TTAAAACCCTA
* * * *
25153973 AAACTAAAACCCCAAAC-TTCAAATCCTA
1 AAATTAAAACCCTAAACTTTAAAACCCTA
25154001 AAATTTAAAAC
1 AAA-TTAAAAC
25154012 TTTAAAATCC
Statistics
Matches: 83, Mismatches: 9, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
28 15 0.18
29 30 0.36
30 38 0.46
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (29 bp):
AAATTAAAACCCTAAACTTTAAAACCCTA
Found at i:25153969 original size:59 final size:58
Alignment explanation
Indices: 25153884--25154011 Score: 143
Period size: 59 Copynumber: 2.2 Consensus size: 58
25153874 CAAAACCTCG
* * * * *
25153884 AAATTGAAACCCTTAATCTTTCAAACCTTAAAACT-AAACCCTAAAACCTTTAAACCCTA
1 AAATTAAAACCCTTAAACTTTAAAACCCTAAAACTAAAACCC-AAAA-CTTCAAACCCTA
* *
25153943 AAATTAAAACCC-TAAACTGTTAAAACCCTAAAACTAAAACCCCAAACTTCAAATCCTA
1 AAATTAAAACCCTTAAACT-TTAAAACCCTAAAACTAAAACCCAAAACTTCAAACCCTA
25154001 AAATTTAAAAC
1 AAA-TTAAAAC
25154012 TTTAAAATCC
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
58 18 0.31
59 35 0.59
60 6 0.10
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (58 bp):
AAATTAAAACCCTTAAACTTTAAAACCCTAAAACTAAAACCCAAAACTTCAAACCCTA
Found at i:25162068 original size:2 final size:2
Alignment explanation
Indices: 25162061--25162090 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
25162051 AACATTCTTA
25162061 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25162091 GGAAATGGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25165418 original size:23 final size:23
Alignment explanation
Indices: 25165383--25165428 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
25165373 TATTTAGTTT
*
25165383 ATTTAAAAATAATA-ATTTTAAA
1 ATTTAAAAATAATATAATTTAAA
*
25165405 ATTTAAAATCTAATATAATTTAAA
1 ATTTAAAA-ATAATATAATTTAAA
25165429 TATATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
23 5 0.25
24 7 0.35
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTTAAAAATAATATAATTTAAA
Found at i:25168868 original size:21 final size:22
Alignment explanation
Indices: 25168817--25168865 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
25168807 TTTTTTATTA
25168817 TTAAATTAAAATTAAAATTTAT
1 TTAAATTAAAATTAAAATTTAT
*
25168839 TTAAATTAAAA-TAATATTT-T
1 TTAAATTAAAATTAAAATTTAT
25168859 TTAAATT
1 TTAAATT
25168866 TAATAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 8 0.31
21 7 0.27
22 11 0.42
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTAAATTAAAATTAAAATTTAT
Found at i:25170409 original size:12 final size:13
Alignment explanation
Indices: 25170382--25170410 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
25170372 AAATTCATAT
25170382 AAATATGATATAA
1 AAATATGATATAA
25170395 AAATATGAT-TAA
1 AAATATGATATAA
25170407 AAAT
1 AAAT
25170411 TTTAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (13 bp):
AAATATGATATAA
Found at i:25170490 original size:12 final size:12
Alignment explanation
Indices: 25170468--25170517 Score: 55
Period size: 12 Copynumber: 4.0 Consensus size: 12
25170458 ATATTTTTTA
25170468 TATTGATATAAAT
1 TATT-ATATAAAT
25170481 TATTATATAAAAT
1 TATTATAT-AAAT
* *
25170494 TTTTATATAAAA
1 TATTATATAAAT
*
25170506 TATAATATAAAT
1 TATTATATAAAT
25170518 ATATAAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
12 16 0.52
13 15 0.48
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (12 bp):
TATTATATAAAT
Found at i:25170493 original size:13 final size:13
Alignment explanation
Indices: 25170468--25170516 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
25170458 ATATTTTTTA
25170468 TATTGATAT-AAAT
1 TATT-ATATAAAAT
25170481 TATTATATAAAAT
1 TATTATATAAAAT
*
25170494 TTTTATATAAAA-
1 TATTATATAAAAT
*
25170506 TATAATATAAA
1 TATTATATAAA
25170517 TATATAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
12 13 0.41
13 19 0.59
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (13 bp):
TATTATATAAAAT
Found at i:25170508 original size:20 final size:20
Alignment explanation
Indices: 25170485--25170550 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
25170475 ATAAATTATT
*
25170485 ATATAAAATTTTTATATAAA
1 ATATAATATTTTTATATAAA
***
25170505 ATATAATATAAATATATAAA
1 ATATAATATTTTTATATAAA
* *
25170525 TTTTAATA-TTTTATATAAA
1 ATATAATATTTTTATATAAA
25170544 ATA-AATA
1 ATATAATA
25170551 CATAAATAAA
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
18 4 0.11
19 9 0.26
20 22 0.63
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATATAATATTTTTATATAAA
Found at i:25172450 original size:18 final size:18
Alignment explanation
Indices: 25172427--25172461 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
25172417 GTTGCAGTTT
*
25172427 CAGCAACTGAAACAACAG
1 CAGCAAATGAAACAACAG
25172445 CAGCAAATGAAACAACA
1 CAGCAAATGAAACAACA
25172462 AAGCACATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.14, T:0.06
Consensus pattern (18 bp):
CAGCAAATGAAACAACAG
Found at i:25173593 original size:7 final size:7
Alignment explanation
Indices: 25173581--25173614 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
25173571 TTTGCAGAAC
25173581 ATGACTG
1 ATGACTG
25173588 ATGACTG
1 ATGACTG
25173595 ATGACTG
1 ATGACTG
25173602 ATGACTG
1 ATGACTG
25173609 ATGACT
1 ATGACT
25173615 ATCTCTATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (7 bp):
ATGACTG
Found at i:25174972 original size:13 final size:13
Alignment explanation
Indices: 25174954--25174981 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
25174944 TTTATGTTTC
25174954 TTTGTCATATTTT
1 TTTGTCATATTTT
25174967 TTTGTCATATTTT
1 TTTGTCATATTTT
25174980 TT
1 TT
25174982 CTTTTATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.71
Consensus pattern (13 bp):
TTTGTCATATTTT
Found at i:25175233 original size:14 final size:14
Alignment explanation
Indices: 25175214--25175256 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
25175204 TTAAAATTTT
25175214 AATAATTTAAAATA
1 AATAATTTAAAATA
*
25175228 AATAATTAAAAAT-
1 AATAATTTAAAATA
*
25175241 CATATATTTAAAATA
1 AATA-ATTTAAAATA
25175256 A
1 A
25175257 TTTCAATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 3 0.13
14 20 0.87
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (14 bp):
AATAATTTAAAATA
Found at i:25176194 original size:20 final size:20
Alignment explanation
Indices: 25176157--25176195 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25176147 AAAATATAAA
* * *
25176157 ATATTTAAATATATAATTAT
1 ATATATAAATAAAAAATTAT
25176177 ATATATAAATAAAAAATTA
1 ATATATAAATAAAAAATTA
25176196 AATAAATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATATAAATAAAAAATTAT
Found at i:25189168 original size:16 final size:15
Alignment explanation
Indices: 25189147--25189177 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
25189137 AACCTGATCT
25189147 AATAATATAATATAAA
1 AATAATATAA-ATAAA
25189163 AATAATATAAATAAA
1 AATAATATAAATAAA
25189178 TGATACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AATAATATAAATAAA
Found at i:25196917 original size:28 final size:31
Alignment explanation
Indices: 25196851--25196918 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
25196841 TATTTATATC
**
25196851 TTATTTTATATAAAAATTATATGTTATAATTT
1 TTATTTTATATAAAAATTATA-GAAATAATTT
25196883 TTA-TTTATATAAAAA-TATA-AAAT-ATTT
1 TTATTTTATATAAAAATTATAGAAATAATTT
25196910 TTATTTTAT
1 TTATTTTAT
25196919 TTTATTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 7 0.21
28 7 0.21
30 4 0.12
31 12 0.36
32 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (31 bp):
TTATTTTATATAAAAATTATAGAAATAATTT
Found at i:25205396 original size:34 final size:34
Alignment explanation
Indices: 25205353--25205422 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
25205343 TCTTCCCGAC
25205353 TTTTGTACTGCAAGCTCAAGGAAATAAATGTATT
1 TTTTGTACTGCAAGCTCAAGGAAATAAATGTATT
*
25205387 TTTTGTACTGCAAGCTCAAGGAAATAAATTTATT
1 TTTTGTACTGCAAGCTCAAGGAAATAAATGTATT
25205421 TT
1 TT
25205423 GTACCTAAGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (34 bp):
TTTTGTACTGCAAGCTCAAGGAAATAAATGTATT
Found at i:25213419 original size:33 final size:33
Alignment explanation
Indices: 25213382--25213447 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
25213372 CATGACATAA
* *
25213382 CTTAAACTTTGAACATGGTACTCAAAAGTCAAC
1 CTTAAACTTTGAACATAGTACTAAAAAGTCAAC
25213415 CTTAAACTTTGAACATAGTACTAAAAAGTCAAC
1 CTTAAACTTTGAACATAGTACTAAAAAGTCAAC
25213448 TTCAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (33 bp):
CTTAAACTTTGAACATAGTACTAAAAAGTCAAC
Found at i:25215186 original size:18 final size:18
Alignment explanation
Indices: 25215150--25215183 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
25215140 AGATTTATAT
*
25215150 TTTTATTATTATTATTTA
1 TTTTATTATTAATATTTA
25215168 TTTTA-TATTAATATTT
1 TTTTATTATTAATATTT
25215184 TATAATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTATTATTAATATTTA
Found at i:25216397 original size:13 final size:13
Alignment explanation
Indices: 25216379--25216406 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
25216369 GATTTCTTAA
25216379 AGGACGAGCCAGC
1 AGGACGAGCCAGC
25216392 AGGACGAGCCAGC
1 AGGACGAGCCAGC
25216405 AG
1 AG
25216407 ACTTTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.29, G:0.39, T:0.00
Consensus pattern (13 bp):
AGGACGAGCCAGC
Found at i:25219765 original size:4 final size:4
Alignment explanation
Indices: 25219756--25219782 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
25219746 TGGTTCAATG
25219756 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
25219783 TTTAATTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:25220753 original size:23 final size:23
Alignment explanation
Indices: 25220710--25220754 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
25220700 TTTTTATTAT
*
25220710 AAAAAAATCATAATTTGAAAATA
1 AAAAAAATCAAAATTTGAAAATA
*
25220733 AAAAAAATTAAAATATT-AAAAT
1 AAAAAAATCAAAAT-TTGAAAAT
25220755 TTAAAGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAAAAATCAAAATTTGAAAATA
Found at i:25223130 original size:24 final size:23
Alignment explanation
Indices: 25223095--25223139 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
25223085 TATATTTATT
*
25223095 TAATTTTATATTTATATTTAAAAA
1 TAATTTTATATTAAT-TTTAAAAA
25223119 TAATATTT-TATTAATTTTAAA
1 TAAT-TTTATATTAATTTTAAA
25223140 TCAAGTAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 6 0.32
24 10 0.53
25 3 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TAATTTTATATTAATTTTAAAAA
Found at i:25223168 original size:2 final size:2
Alignment explanation
Indices: 25223161--25223185 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25223151 TGATTATGTT
25223161 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
25223186 GGATCAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25239423 original size:23 final size:22
Alignment explanation
Indices: 25239393--25239438 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
25239383 AAATTAATTT
25239393 TAAACATATATAAAATAACAAAA
1 TAAACATATATAAAATAA-AAAA
* *
25239416 TAAACATATTTAAATTAAAAAA
1 TAAACATATATAAAATAAAAAA
25239438 T
1 T
25239439 TATGTTAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (22 bp):
TAAACATATATAAAATAAAAAA
Found at i:25241292 original size:15 final size:16
Alignment explanation
Indices: 25241267--25241296 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25241257 TTTTAAAAAT
25241267 TAAGTATTAGATAGGG
1 TAAGTATTAGATAGGG
25241283 TAAG-ATTAGATAGG
1 TAAGTATTAGATAGG
25241297 ATAAAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (16 bp):
TAAGTATTAGATAGGG
Found at i:25241397 original size:18 final size:18
Alignment explanation
Indices: 25241376--25241411 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
25241366 AAATTATTTT
25241376 TTTTAAATTTATATTTAA
1 TTTTAAATTTATATTTAA
*
25241394 TTTTATATTTATATTTAA
1 TTTTAAATTTATATTTAA
25241412 AATAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTAAATTTATATTTAA
Found at i:25241419 original size:18 final size:18
Alignment explanation
Indices: 25241382--25241425 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
25241372 TTTTTTTTAA
** *
25241382 ATTTATATTTAATTTTAT
1 ATTTATATTTAAAATAAT
25241400 ATTTATATTTAAAATAAT
1 ATTTATATTTAAAATAAT
25241418 ATTT-TATT
1 ATTTATATT
25241426 AATTTCGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTATATTTAAAATAAT
Found at i:25241774 original size:20 final size:20
Alignment explanation
Indices: 25241705--25241774 Score: 50
Period size: 20 Copynumber: 3.2 Consensus size: 20
25241695 TAGATTTGAT
25241705 AATTTATATATTTATATTATATAA
1 AATTT-TATATTT-TA-TATA-AA
* * **
25241729 AATATTAATAATTTATATATT
1 AAT-TTTATATTTTATATAAA
*
25241750 TATTTTATATTTTATATAAA
1 AATTTTATATTTTATATAAA
25241770 AATTT
1 AATTT
25241775 ATGTATTATT
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
20 17 0.49
21 2 0.06
22 4 0.11
23 2 0.06
24 8 0.23
25 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTTTATATTTTATATAAA
Found at i:25243715 original size:16 final size:16
Alignment explanation
Indices: 25243694--25243747 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
25243684 GATTAAATAA
25243694 AATAATAAATTATTTT
1 AATAATAAATTATTTT
* *
25243710 AATAATAAATCATCTT
1 AATAATAAATTATTTT
*
25243726 -ATAATTAAATTATTAT
1 AATAA-TAAATTATTTT
25243742 AATAAT
1 AATAAT
25243748 TTTAAAAATG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
15 4 0.13
16 23 0.74
17 4 0.13
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAATAAATTATTTT
Found at i:25245998 original size:13 final size:14
Alignment explanation
Indices: 25245972--25246000 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
25245962 TATAGTTATA
25245972 TAATTATAATATTT
1 TAATTATAATATTT
25245986 TAATTAT-ATATTT
1 TAATTATAATATTT
25245999 TA
1 TA
25246001 TTAAGTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTATAATATTT
Found at i:25246325 original size:13 final size:14
Alignment explanation
Indices: 25246299--25246327 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
25246289 TATAATTATA
25246299 TAATTATAATATTT
1 TAATTATAATATTT
25246313 TAATTAT-ATATTT
1 TAATTATAATATTT
25246326 TA
1 TA
25246328 TTTGAATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTATAATATTT
Found at i:25246402 original size:43 final size:43
Alignment explanation
Indices: 25246354--25246435 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
25246344 TCGGCTTAAG
25246354 TTTTAACTT-TTTTGTTGAAG-ATTCAAT-TCAAAATTTAAACAAA
1 TTTTAA-TTGTTTTGTT-AAGTATTCAATCT-AAAATTTAAACAAA
*
25246397 TTTTAATTGTTTTGTTTAGTATTCAATCTAAAATTTAAA
1 TTTTAATTGTTTTGTTAAGTATTCAATCTAAAATTTAAA
25246436 GGAATTTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
42 4 0.11
43 30 0.86
44 1 0.03
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (43 bp):
TTTTAATTGTTTTGTTAAGTATTCAATCTAAAATTTAAACAAA
Found at i:25257330 original size:21 final size:21
Alignment explanation
Indices: 25257305--25257350 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
25257295 TTATTTTTAT
*
25257305 TTTTTTTATTTCATATTTATCA
1 TTTTTATATTTCAT-TTTATCA
* *
25257327 TTTTTATATTTTATTTTATGA
1 TTTTTATATTTCATTTTATCA
25257348 TTT
1 TTT
25257351 ATTTTCTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTTATATTTCATTTTATCA
Found at i:25258726 original size:80 final size:80
Alignment explanation
Indices: 25258592--25258764 Score: 256
Period size: 80 Copynumber: 2.2 Consensus size: 80
25258582 CTGTCAATGG
* * * * *
25258592 CCAGCCTTGGCACCAAGTTCGGGTACATCATCTCAGAAATAATGGAGACTTTGGGTCTGCCCAAT
1 CCAGCCTTGGCACCAAGTTCAGGCACATCATATCAGAAATAATAGAGACCTTGGGTCTGCCCAAT
*
25258657 ATTTTTTATTTTCTC
66 ATTTTTGATTTTCTC
** *
25258672 CCAGCCTTGGCACCAAGTTCAGGCATGTCATATCAGAAATAATAGAGACCTTGGGTTTGCCCAAT
1 CCAGCCTTGGCACCAAGTTCAGGCACATCATATCAGAAATAATAGAGACCTTGGGTCTGCCCAAT
25258737 ATTTTTGATTTTCTC
66 ATTTTTGATTTTCTC
*
25258752 CCAGCCATGGCAC
1 CCAGCCTTGGCAC
25258765 TGCAACGCCA
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 83 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (80 bp):
CCAGCCTTGGCACCAAGTTCAGGCACATCATATCAGAAATAATAGAGACCTTGGGTCTGCCCAAT
ATTTTTGATTTTCTC
Found at i:25259397 original size:60 final size:60
Alignment explanation
Indices: 25259130--25259588 Score: 538
Period size: 60 Copynumber: 7.6 Consensus size: 60
25259120 AAAAGAAATA
25259130 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGA-TT
1 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGATTT
* *
25259189 TTTTTGAGAAAAAGTTGAAAGTATCAA-TTTTCTTTAAAAATAAATTTTTTAAAAAAATGTTTTT
1 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAA--TTTTCAAAAAA-G----A
25259253 TTT
58 TTT
** * * *
25259256 TTTTTGAG-AAAAGTTGAAAGTATCAATTTTT-TTCGAAATCAAAGTTTCAAAAAAAATAT
1 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTTCAAAAAAGATTT
* * *
25259315 TTTTGGA-AAAAAATTGAAAGTATTAATTTTTCTTAAAAATAAATTTTCAAAAAAGATTT
1 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGATTT
* *
25259374 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAATATTT
1 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGATTT
* * *** * * * *
25259434 TTTTTGAGGAAAAA-TTGAAAGTATTATTTTTTC-TCGTAATCAAAGTTTCAAAAAAAAATA
1 TTTTTGA-GAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTTCAAAAAAGATTT
* *
25259494 TTTTT-AGAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTTAAAAAATATTT
1 TTTTTGAG-AAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGATTT
*
25259554 TTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTT
1 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTT
25259589 GCACAAAAAT
Statistics
Matches: 337, Mismatches: 43, Indels: 39
0.80 0.10 0.09
Matches are distributed among these distances:
58 6 0.02
59 99 0.29
60 160 0.47
61 21 0.06
62 1 0.00
64 9 0.03
65 6 0.02
66 21 0.06
67 14 0.04
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.42
Consensus pattern (60 bp):
TTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGATTT
Found at i:25265350 original size:22 final size:22
Alignment explanation
Indices: 25265325--25265383 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
25265315 GAATATTTTG
25265325 ATGAGAATTTTTGAGAACTC-AA
1 ATGAGAATTTTTGAG-ACTCAAA
* **
25265347 ATGAGAATCTTTGAGTTTCAAA
1 ATGAGAATTTTTGAGACTCAAA
*
25265369 ATGAAAATTTTTGAG
1 ATGAGAATTTTTGAG
25265384 GAGTGAAACC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 2 0.06
22 29 0.94
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.36
Consensus pattern (22 bp):
ATGAGAATTTTTGAGACTCAAA
Done.